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zhanglab
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psamm
Curation and analysis of metabolic models
https://zhanglab.github.io/psamm/
GNU General Public License v3.0
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excelexport: Mention name of Python package in error message
#226
jonls
closed
7 years ago
0
docs: Add missing API docs for gapfilling
#225
jonls
closed
7 years ago
0
Specify SBML version in documentation
#224
jonls
closed
7 years ago
0
native: Fix Sphinx warning
#223
jonls
closed
7 years ago
0
Namespace update
#222
jonls
closed
7 years ago
0
Reaction format
#221
jonls
closed
7 years ago
0
sbml: Fix access to charge property
#220
jonls
closed
7 years ago
0
sbml: Ignore boundary compartments
#219
jonls
closed
7 years ago
0
psamm-import command not found
#218
arturomarin
closed
7 years ago
2
sbml: Parse compartment entries
#217
jonls
closed
7 years ago
0
native: Allow writing compartments in ModelWriter
#216
jonls
closed
7 years ago
0
Create gapfilling module
#215
jonls
closed
7 years ago
0
Create unique IDs for exchange/transport reactions
#214
jonls
closed
7 years ago
0
genedelete: Fix typo
#213
jonls
closed
7 years ago
0
Rename media to exchange
#212
jonls
closed
7 years ago
1
lp: Raise error on certain use of Expression/Relation
#211
jonls
closed
7 years ago
0
gapcheck: Implement alternative production check
#210
jonls
closed
7 years ago
0
WIP: gapfind: Alternative GapFind algorithm which is more robust
#209
jonls
opened
7 years ago
0
Fix issues with non-float numbers provided to solver
#208
jonls
closed
7 years ago
0
boolean: Allow getting length of And/Or terms
#207
jonls
closed
7 years ago
0
lpsolver: Raise error when redefining variables
#206
jonls
closed
7 years ago
0
Add eflux command
#205
jonls
opened
7 years ago
0
Add made command
#204
jonls
opened
7 years ago
0
context: Do not write question marks in FileMark string
#203
jonls
closed
7 years ago
0
Duplicates check
#202
jonls
closed
7 years ago
0
Fastgapfill output
#201
jonls
closed
7 years ago
0
Add options to gapfill command
#200
jonls
closed
7 years ago
0
Use compartment information when gap-filling
#199
jonls
closed
7 years ago
0
Add missing API documentation
#198
jonls
closed
7 years ago
0
Allow compartments to be specified in model.yaml
#197
jonls
closed
7 years ago
0
Fixed --help newline styling
#196
bishopbrian25
closed
7 years ago
2
sbmlexport: user can optionally specify output file
#195
jonls
closed
7 years ago
0
Support Python 3.5/3.6
#194
jonls
closed
7 years ago
0
Fix support for CPLEX 12.7
#193
jonls
closed
7 years ago
0
Added MOMA implementation into genedelete command
#192
bishopbrian25
closed
7 years ago
1
Added Minimization of Metabolic Adjustments (MOMA)
#191
bishopbrian25
closed
7 years ago
3
Added DuplicatesCheck code to project
#190
jgyllinsky
closed
7 years ago
1
Added the implementation of MOMA
#189
bishopbrian25
closed
7 years ago
0
Simplify tests for commands
#188
jonls
closed
7 years ago
0
tableexport: Write out Git version as metadata
#187
jonls
closed
7 years ago
0
tableexport: Quote problematic fields
#186
jonls
closed
7 years ago
0
Use coverage 4 for test coverage analysis
#185
jonls
closed
7 years ago
0
setup.py: Specify PyYAML version as ~=3.11
#184
jonls
closed
7 years ago
0
docs: Update for gapcheck command
#183
jonls
closed
7 years ago
0
Provide better error message when flux balance problem is infeasible
#182
jonls
closed
7 years ago
0
Move gapfind to new command gapcheck
#181
jonls
closed
7 years ago
0
Split reader part of NativeModel into ModelReader
#180
jonls
closed
7 years ago
0
WIP: Allowing writing full model with native module
#179
jonls
opened
7 years ago
0
kegg: Parse reactions when accessed from entry
#178
jonls
closed
7 years ago
0
tests: Consistently name test files based on path of tested file
#177
jonls
closed
7 years ago
0
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